Ccr5 (C-C motif chemokine receptor 5) - Rat Genome Database

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner VCMap
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Ccr5 (C-C motif chemokine receptor 5) Rattus norvegicus
Analyze
Symbol: Ccr5
Name: C-C motif chemokine receptor 5
RGD ID: 620596
Description: Exhibits protein kinase binding activity. Involved in several processes, including nervous system development; positive regulation of cytokine production; and response to bacterium. Localizes to cell surface and endosome. Used to study Alzheimer's disease; plague; and visual epilepsy. Biomarker of several diseases, including artery disease (multiple); diabetes mellitus (multiple); end stage renal disease; orchitis; and uveitis (multiple). Human ortholog(s) of this gene implicated in several diseases, including Kawasaki disease; West Nile fever; autoimmune disease (multiple); berylliosis; and sarcoidosis (multiple). Orthologous to human CCR5 (C-C motif chemokine receptor 5); PARTICIPATES IN interleukin-12 signaling pathway; chemokine mediated signaling pathway; cytokine mediated signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: C-C chemokine receptor type 5; C-C CKR-5; CC-CKR-5; CCR-5; chemokine (C-C motif) receptor 5; chemokine (C-C) receptor 5; Ckr5; Cmkbr5; MIP-1 alpha receptor
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28123,752,423 - 123,757,538 (+)NCBI
Rnor_6.0 Ensembl8133,197,032 - 133,215,614 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08133,192,398 - 133,215,599 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08132,362,664 - 132,367,779 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48128,907,157 - 128,912,272 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18128,929,594 - 128,932,000 (+)NCBI
Celera8122,847,673 - 122,852,786 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acquired immunodeficiency syndrome  (ISO)
Acute Hepatitis  (ISO)
acute kidney failure  (ISO)
Alcoholic Fatty Liver  (ISO)
allergic contact dermatitis  (IEP)
Alzheimer's disease  (IMP,ISO)
anterior uveitis  (IEP)
Arterial Injury  (IEP)
arteriosclerosis  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
Behcet's disease  (ISO)
berylliosis  (ISO)
Birth Injuries  (IEP)
Brain Injuries  (IEP)
brain ischemia  (IEP)
breast cancer  (ISO)
cerebral infarction  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
chlamydia  (ISO)
Chronic Hepatitis C  (ISO)
chronic obstructive pulmonary disease  (ISO)
corneal neovascularization  (ISO)
coronary artery disease  (IEP)
Coronary Disease  (ISO)
Coronavirus infectious disease  (ISO,ISS)
cutaneous leishmaniasis  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
dry eye syndrome  (ISO)
end stage renal disease  (IEP)
Experimental Arthritis  (IEP)
Experimental Autoimmune Encephalomyelitis  (IEP)
Experimental Diabetes Mellitus  (IEP)
Experimental Liver Cirrhosis  (ISO)
fallopian tube disease  (ISO)
Fever  (IMP,ISO)
Flaviviridae Infections  (ISO)
gallbladder cancer  (ISO)
glaucoma  (ISO)
Graft vs Host Disease  (ISO)
granulomatosis with polyangiitis  (ISO)
hepatitis B  (ISO)
hepatitis C  (ISO)
Herpes Simplex Encephalitis  (ISO)
herpes simplex virus keratitis  (ISO)
human immunodeficiency virus infectious disease  (ISO)
Human Influenza  (ISO)
Hyperalgesia  (IEP,IMP,ISO)
hypertension  (IEP,ISO)
Hypoxia-Ischemia, Brain  (IEP)
Inflammation  (IEP)
interstitial lung disease  (ISO)
juvenile rheumatoid arthritis  (ISO)
Kawasaki disease  (ISO)
keratoconjunctivitis sicca  (ISO)
leishmaniasis  (ISO)
Liver Injury  (IMP)
Lymphatic Metastasis  (ISO)
Mammary Neoplasms, Experimental  (ISO)
multiple sclerosis  (ISO)
Mycoplasma Infections  (ISO)
Mycoplasma pneumoniae pneumonia  (ISO)
Myocardial Reperfusion Injury  (IEP,ISO)
nephritis  (ISO)
optic neuritis  (ISO)
Oral Lichen Planus  (ISO)
orchitis  (IEP)
ovarian carcinoma  (ISO)
pancreatic cancer  (ISO)
paracoccidioidomycosis  (ISO)
Perennial Allergic Rhinitis  (ISO)
plague  (IAGP)
pleural tuberculosis  (ISO)
pneumonia  (ISO)
posterior uveitis  (ISO)
psoriasis  (ISO)
pulmonary emphysema  (ISO)
pulmonary fibrosis  (ISO)
pulmonary sarcoidosis  (ISO)
pulmonary tuberculosis  (ISO)
respiratory syncytial virus infectious disease  (ISO)
Respirovirus Infections  (ISO)
rheumatoid arthritis  (ISO)
sarcoidosis  (ISO)
Sjogren's syndrome  (ISO)
status epilepticus  (IEP)
syphilis  (ISO)
systemic lupus erythematosus  (ISO)
Transplant Rejection  (IEP)
type 1 diabetes mellitus  (IEP,ISO)
type 1 diabetes mellitus 22  (ISO)
type 2 diabetes mellitus  (IEP,ISO)
Ulcer  (ISO)
urticaria  (ISO)
uveitis  (IEP)
visceral leishmaniasis  (ISO)
visual epilepsy  (IMP)
West Nile fever  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-mevalonic acid  (ISO)
(S)-nicotine  (ISO)
1,3-benzothiazole-2-thiol  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-naphthylamine  (ISO)
3-chlorophenol  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
benzalkonium chloride  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
bleomycin A2  (ISO)
buta-1,3-diene  (ISO)
carbon nanotube  (ISO)
celecoxib  (ISO)
chloroprene  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cocaine  (ISO)
crocidolite asbestos  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cyproterone acetate  (ISO)
D-penicillamine  (EXP)
dextran sulfate  (ISO)
diclofenac  (ISO)
dioxygen  (ISO)
disulfiram  (ISO)
ethyl methanesulfonate  (ISO)
eugenol  (ISO)
formaldehyde  (ISO)
graphene oxide  (ISO)
indole-3-methanol  (ISO)
isopentenyl diphosphate  (ISO)
ketamine  (EXP)
lipopolysaccharide  (ISO)
maraviroc  (ISO)
mechlorethamine  (EXP)
mercury dichloride  (EXP)
methamphetamine  (EXP)
methyl methanesulfonate  (ISO)
mycotoxin  (ISO)
nickel atom  (ISO)
nicotine  (ISO)
nitric oxide  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
pentachlorophenol  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
proanthocyanidin  (ISO)
prostaglandin E2  (ISO)
protein kinase inhibitor  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
SCH 23390  (EXP)
silicon dioxide  (ISO)
simvastatin  (EXP,ISO)
sodium dodecyl sulfate  (ISO)
Soman  (EXP)
staurosporine  (EXP)
testosterone  (EXP)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
tremolite asbestos  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
vinclozolin  (EXP)
wortmannin  (ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
calcium ion transport  (ISO)
calcium-mediated signaling  (IBA,IEA,ISO)
cell chemotaxis  (IBA)
cell-cell signaling  (IEA,ISO)
cellular response to lipopolysaccharide  (IEA,ISO)
chemokine-mediated signaling pathway  (IEA)
chemotaxis  (IEA)
defense response  (ISO)
defense response to bacterium  (IEP)
fat cell differentiation  (IEP)
forebrain development  (IEP)
G protein-coupled receptor signaling pathway  (IEA,ISO)
immune response  (IBA,IEA)
inflammatory response  (IBA,IEA,IEP)
inflammatory response to antigenic stimulus  (IEP)
leukocyte migration  (TAS)
MAPK cascade  (IEA,ISO)
negative regulation of axon extension  (IMP)
negative regulation of cell migration  (IMP)
negative regulation of macrophage apoptotic process  (IEA,ISO)
negative regulation of neural precursor cell proliferation  (IMP)
neuron death  (IMP)
positive regulation of apoptotic process by virus  (IMP)
positive regulation of cell-cell adhesion  (IMP)
positive regulation of cytosolic calcium ion concentration  (IBA,IMP)
positive regulation of fever generation  (IMP)
positive regulation of gene expression  (IMP)
positive regulation of inflammatory response  (IMP)
positive regulation of interleukin-1 beta production  (IMP)
positive regulation of interleukin-6 production  (IMP)
positive regulation of neuron differentiation  (IMP)
positive regulation of tumor necrosis factor production  (IMP)
release of sequestered calcium ion into cytosol by sarcoplasmic reticulum  (IEA,ISO)
response to cholesterol  (IEA,ISO)
response to ionizing radiation  (IEP)
response to lipopolysaccharide  (IEP)
signaling  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Abdolmohammadi R, etal., Asian Pac J Cancer Prev. 2016 Oct 1;17(10):4643-4646.
2. Ahad MA, etal., Mol Vis. 2007 Mar 23;13:388-96.
3. Ahlenstiel G, etal., J Hepatol. 2003 Aug;39(2):245-52.
4. Ahn SH, etal., J Med Virol. 2006 Dec;78(12):1564-71. doi: 10.1002/jmv.20739.
5. Al-Abdulhadi SA and Al-Rabia MW, Ann Saudi Med. 2010 Mar-Apr;30(2):115-22.
6. Almeida-Suhett CP, etal., J Neurotrauma. 2014 Apr 1;31(7):683-90. doi: 10.1089/neu.2013.3029. Epub 2014 Mar 3.
7. Ambati BK, etal., Invest Ophthalmol Vis Sci 2003 Feb;44(2):590-3.
8. Bachis A, etal., J Neuroimmune Pharmacol. 2009 Mar;4(1):150-60. Epub 2008 Nov 26.
9. Barr EL, etal., J Microbiol Immunol Infect. 2005 Aug;38(4):244-54.
10. Baudouin C, etal., J Allergy Clin Immunol. 2005 Sep;116(3):614-9.
11. Bhangoo S, etal., Mol Pain. 2007 Dec 12;3:38.
12. Bixler GV, etal., BMC Med Genomics. 2011 May 15;4:40. doi: 10.1186/1755-8794-4-40.
13. Bogdanski P, etal., Int J Clin Pharmacol Ther. 2007 Oct;45(10):563-7.
14. Boin F, etal., Arthritis Rheum. 2008 Apr;58(4):1165-74.
15. Bouazzaoui A, etal., Genes Immun. 2009 Dec;10(8):687-701. Epub 2009 Jul 2.
16. Bracke KR, etal., Clin Exp Allergy. 2007 Oct;37(10):1467-79.
17. Brajao de Oliveira K, etal., J Cutan Pathol. 2007 Jan;34(1):27-32.
18. Braunersreuther V, etal., Arterioscler Thromb Vasc Biol. 2007 Feb;27(2):373-9. Epub 2006 Nov 30.
19. Breunis WB, etal., Clin Exp Immunol. 2007 Oct;150(1):83-90. Epub 2007 Aug 2.
20. Brozyna S, etal., COPD. 2009 Feb;6(1):4-16.
21. Brzoza Z, etal., Allergol Immunopathol (Madr). 2013 May 30. pii: S0301-0546(13)00103-1. doi: 10.1016/j.aller.2013.02.003.
22. Burns JC, etal., J Infect Dis. 2005 Jul 15;192(2):344-9. Epub 2005 Jun 8.
23. Capelli A, etal., Am J Respir Crit Care Med. 2002 Jan 15;165(2):236-41.
24. Capelli A, etal., Eur Respir J. 2005 Apr;25(4):701-7.
25. Carr DJ, etal., J Gen Virol. 2006 Mar;87(Pt 3):489-99.
26. Chen J, etal., J Virol. 2010 Feb;84(3):1289-301. Epub 2009 Nov 11.
27. Choi DY, etal., Arch Toxicol. 2015 Feb;89(2):211-20. doi: 10.1007/s00204-014-1253-3. Epub 2014 Apr 27.
28. Chung JI, etal., Osteoarthritis Cartilage. 2012 Jan 24.
29. Cowell RM, etal., J Neuroimmunol. 2006 Apr;173(1-2):155-65. Epub 2006 Mar 3.
30. Daya S, etal., Differentiation. 2007 Jun;75(5):360-70. Epub 2007 Feb 5.
31. Dhaouadi T, etal., Iran J Allergy Asthma Immunol. 2013 Mar;12(1):29-36. doi: 012.01/ijaai.2936.
32. Eltayeb S, etal., J Neuroinflammation. 2007 May 7;4:14.
33. Fadel SA, etal., Eur J Immunol. 2008 Dec;38(12):3376-87.
34. Favorova OO, etal., Neurology 2002 Nov 26;59(10):1652-5.
35. Fischer A, etal., J Mol Med. 2008 May;86(5):553-61. Epub 2008 Mar 1.
36. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
37. Glass WG, etal., Virology. 2001 Sep 15;288(1):8-17. doi: 10.1006/viro.2001.1050.
38. Grayson MH, etal., J Immunol. 2007 Aug 1;179(3):1438-48.
39. Gremy O, etal., World J Gastroenterol. 2006 Aug 21;12(31):4996-5004.
40. Grumelli S, etal., PLoS Med. 2004 Oct;1(1):e8. Epub 2004 Oct 19.
41. Guazzone VA, etal., Reproduction. 2012 May;143(5):651-62. Epub 2012 Feb 20.
42. Gulati A, etal., Arch Ophthalmol. 2006 May;124(5):710-6.
43. Haas CS, etal., Arthritis Rheum. 2005 Dec;52(12):3718-30.
44. Habasque C, etal., Mol Hum Reprod 2002 May;8(5):419-25.
45. Hanna LE, etal., AIDS Res Hum Retroviruses. 2005 Dec;21(12):997-1002.
46. Hartmann B, etal., Inflamm Res. 2006 Aug;55(8):322-34.
47. Hildebrandt GC, etal., Blood. 2005 Mar 15;105(6):2249-57. Epub 2004 Nov 16.
48. Houman H, etal., J Autoimmun. 2004 Nov;23(3):267-73.
49. Hu JY, etal., Cytokine. 2013 Apr;62(1):141-5. doi: 10.1016/j.cyto.2013.01.020. Epub 2013 Mar 9.
50. Huik K, etal., PLoS One. 2016 Jun 15;11(6):e0156850. doi: 10.1371/journal.pone.0156850. eCollection 2016.
51. Hull J, etal., J Infect Dis. 2003 Sep 15;188(6):904-7. Epub 2003 Sep 9.
52. Ji JF, etal., Neurosci Lett. 2004 Jan 30;355(3):236-40.
53. Kato Y, etal., Int Arch Allergy Immunol. 2006;139(3):245-57. Epub 2006 Jan 30.
54. Keynan Y, etal., Emerg Infect Dis. 2010 Oct;16(10):1621-2.
55. Kim HK, etal., Biotechnol Lett. 2006 Jan;28(1):17-23.
56. Kohlmeier JE, etal., Immunity. 2008 Jul 18;29(1):101-13.
57. Komatsu K, etal., Curr Eye Res. 2008 Sep;33(9):736-49. doi: 10.1080/02713680802344716.
58. Lee YK, etal., Neuropharmacology. 2013 Apr;67:57-65. doi: 10.1016/j.neuropharm.2012.10.030. Epub 2012 Nov 9.
59. Li G, etal., Brain Res Bull. 2013 Jan;90:79-87. doi: 10.1016/j.brainresbull.2012.10.002. Epub 2012 Oct 9.
60. Li YM, etal., Chin Med Sci J. 2010 Sep;25(3):162-8.
61. Lindner E, etal., BMC Med Genet. 2007 Jun 12;8:33.
62. Liu CT, etal., Zhonghua Jie He He Hu Xi Za Zhi. 2004 Jun;27(6):398-402.
63. Liu F, etal., Plast Reconstr Surg. 2013 Mar;131(3):343e-50e. doi: 10.1097/PRS.0b013e31827c6daa.
64. Liu FC, etal., PLoS One. 2013 Oct 18;8(10):e78861. doi: 10.1371/journal.pone.0078861. eCollection 2013.
65. Liu H, etal., PLoS One. 2012;7(1):e30873. doi: 10.1371/journal.pone.0030873. Epub 2012 Jan 23.
66. Lohmann T, etal., Diabetes. 2002 Aug;51(8):2474-80.
67. Louboutin JP, etal., FASEB J. 2010 Oct 12.
68. Ma B, etal., J Clin Invest. 2005 Dec;115(12):3460-72. Epub 2005 Nov 10.
69. Machado RR, etal., Brain Res. 2007 Jun 9;.
70. Maier-Moore JS, etal., Clin Immunol. 2013 Aug;148(2):206-8. doi: 10.1016/j.clim.2013.05.010. Epub 2013 May 24.
71. Majumdar SB, etal., Indian J Exp Biol. 2014 Jan;52(1):17-29.
72. Mamtani M, etal., PLoS One. 2010 Jul 7;5(7):e11458. doi: 10.1371/journal.pone.0011458.
73. Manczak M, etal., J Autoimmun. 2002 Jun;18(4):259-70.
74. Manes S, etal., J Exp Med. 2003 Nov 3;198(9):1381-9.
75. Mateo T, etal., J Immunol. 2006 May 1;176(9):5577-86.
76. Matsushita K, etal., Anesthesiology. 2014 Feb 28.
77. Melli G, etal., Brain. 2006 May;129(Pt 5):1330-8. Epub 2006 Mar 14.
78. Mendez II, etal., J Immunol. 2004 Jul 15;173(2):1327-35.
79. Mettimano M, etal., Br J Biomed Sci. 2003;60(1):19-21.
80. MGD data from the GO Consortium
81. Milliken D, etal., Clin Cancer Res. 2002 Apr;8(4):1108-14.
82. Mojtahedi Z, etal., Clin Exp Rheumatol. 2006 Sep-Oct;24(5 Suppl 42):S91-4.
83. Moreira AP, etal., J Immunol. 2008 Mar 1;180(5):3049-56.
84. Moreno C, etal., Hepatology. 2005 Oct;42(4):854-62. doi: 10.1002/hep.20865.
85. Morrison PT, etal., Clin Immunol. 2008 Jul;128(1):85-93. Epub 2008 Apr 25.
86. Nakajima K, etal., Diabetes Care. 2003 Mar;26(3):892-8.
87. Nattermann J, etal., AIDS. 2003 Jul 4;17(10):1457-62. doi: 10.1097/01.aids.0000076271.76134.58.
88. NCBI rat LocusLink and RefSeq merged data July 26, 2002
89. Nigro L, etal., Med Microbiol Immunol. 2007 Dec;196(4):253-5. Epub 2007 Apr 25.
90. O'Grady SP, etal., Syst Biol Reprod Med. 2010 Aug;56(4):292-302.
91. Ohnuma A, etal., Exp Toxicol Pathol. 2009 Sep 15.
92. OMIM Disease Annotation Pipeline
93. Padi SS, etal., Pain. 2012 Jan;153(1):95-106. doi: 10.1016/j.pain.2011.09.022. Epub 2011 Oct 26.
94. Pai JK, etal., Atherosclerosis. 2006 May;186(1):132-9. Epub 2005 Aug 1.
95. Park JH, etal., J Gastroenterol Hepatol. 2017 Jun;32(6):1258-1264. doi: 10.1111/jgh.13657.
96. Park MH, etal., Exp Cell Res. 2009 Oct 1;315(16):2715-26. Epub 2009 Jun 24.
97. Pashenkov M, etal., Clin Exp Immunol. 2002 Mar;127(3):519-26.
98. Petrek M, etal., Clin Exp Rheumatol. 2002 Sep-Oct;20(5):701-3.
99. Petrkova J, etal., J Intern Med. 2005 Jun;257(6):564-6.
100. Pipeline to import KEGG annotations from KEGG into RGD
101. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
102. Pokkali S, etal., FEMS Immunol Med Microbiol. 2009 Apr;55(3):352-60. Epub 2009 Jan 12.
103. Pollok-Kopp B, etal., J Biol Chem 2003 Jan 24;278(4):2190-8.
104. Potteaux S, etal., Arterioscler Thromb Vasc Biol. 2006 Aug;26(8):1858-63. Epub 2006 Jun 8.
105. Prahalad S Genes Immun. 2006 Apr;7(3):264-8.
106. Prahalad S, etal., Genes Immun. 2006 Sep;7(6):468-75. Epub 2006 Jun 15.
107. Prasad P, etal., BMC Med Genet. 2007 Apr 12;8:20.
108. RGD automated data pipeline
109. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
110. RGD automated import pipeline for gene-chemical interactions
111. Ribas AD, etal., Mol Med Rep. 2013 Jul;8(1):189-94. doi: 10.3892/mmr.2013.1452. Epub 2013 Apr 30.
112. Ronaldson PT and Bendayan R, Mol Pharmacol. 2006 Sep;70(3):1087-98. Epub 2006 Jun 21.
113. Rosi S, etal., Neuroscience. 2005;134(2):671-6.
114. Sato H, etal., Eur Respir J. 2010 Aug;36(2):331-8. Epub 2010 Jan 14.
115. Sato H, etal., Eur Respir J. 2010 Feb;35(2):324-30. Epub 2009 Aug 13.
116. Sato N, etal., J Immunol. 1999 Nov 15;163(10):5519-25.
117. Sbrana S, etal., Cytometry B Clin Cytom. 2005 May;65(1):14-21.
118. Schaier M, etal., Am J Physiol Renal Physiol. 2009 Sep;297(3):F769-80. Epub 2009 Jun 17.
119. Seki E, etal., J Clin Invest. 2009 Jul;119(7):1858-70.
120. Serra AM, etal., Am J Pathol. 2012 Aug;181(2):719-27. doi: 10.1016/j.ajpath.2012.04.009. Epub 2012 Jun 4.
121. Shahrara S, etal., Arthritis Rheum. 2003 Dec;48(12):3568-83.
122. Sheffield JS, etal., J Infect Dis. 2007 Nov 15;196(10):1509-16. Epub 2007 Oct 31.
123. Shen B, etal., Mol Cell Biochem. 2013 Jun;378(1-2):137-44. doi: 10.1007/s11010-013-1604-z. Epub 2013 Mar 3.
124. Smyth LJ, etal., Clin Exp Immunol. 2008 Oct;154(1):56-63. Epub 2008 Aug 22.
125. Soares DM, etal., Brain Behav Immun. 2013 Nov;34:120-9. doi: 10.1016/j.bbi.2013.08.005. Epub 2013 Aug 30.
126. Soler DC, etal., Clin Immunol. 2013 Oct;149(1):111-8. doi: 10.1016/j.clim.2013.06.007. Epub 2013 Jul 6.
127. Spleiss O, etal., J Neurosci Res 1998 Jul 1;53(1):16-28.
128. Srivastava A, etal., Scand J Immunol. 2008 May;67(5):516-22.
129. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
130. Suffee N, etal., Angiogenesis. 2012 Dec;15(4):727-44. doi: 10.1007/s10456-012-9285-x. Epub 2012 Jun 30.
131. Sun X, etal., Infect Immun. 2006 Oct;74(10):5943-54.
132. Suzaki Y, etal., Eur Respir J. 2008 Apr;31(4):783-9. Epub 2007 Dec 19.
133. Tan MC, etal., J Immunol. 2009 Feb 1;182(3):1746-55.
134. Tavares E and Minano FJ, Fundam Clin Pharmacol. 2004 Apr;18(2):163-9.
135. Teleshova N, etal., J Neurol. 2002 Jun;249(6):723-9.
136. Tokami H, etal., Brain Res. 2013 Jun 23;1517:122-32. doi: 10.1016/j.brainres.2013.04.022. Epub 2013 Apr 18.
137. Tollenaere C, etal., Infect Genet Evol. 2008 Dec;8(6):891-7. Epub 2008 Jul 25.
138. Trinh L, etal., Mol Vis. 2008;14:2428-34. Epub 2008 Dec 19.
139. Ungvari I, etal., J Allergy Clin Immunol. 2007 Jun;119(6):1545-7. Epub 2007 Apr 18.
140. Vassiliadis S, etal., JOP 2002 May;3(3):66-75.
141. Velasco-Velazquez M, etal., Cancer Res. 2012 Aug 1;72(15):3839-50. doi: 10.1158/0008-5472.CAN-11-3917. Epub 2012 May 25.
142. Viel EC, etal., Am J Physiol Heart Circ Physiol. 2010 Mar;298(3):H938-44. Epub 2009 Dec 31.
143. Vilela MC, etal., BMC Neurosci. 2013 Feb 7;14:19. doi: 10.1186/1471-2202-14-19.
144. Walker JK, etal., Am J Respir Cell Mol Biol. 2006 Jun;34(6):711-8. Epub 2006 Feb 10.
145. Wasmuth HE, etal., J Mol Med (Berl). 2004 Jan;82(1):64-9. doi: 10.1007/s00109-003-0505-0. Epub 2003 Dec 13.
146. Woitas RP, etal., Gastroenterology. 2002 Jun;122(7):1721-8.
147. Wood HM, etal., J Urol. 2008 Aug;180(2):753-9. Epub 2008 Jun 13.
148. Xia MQ, etal., Am J Pathol. 1998 Jul;153(1):31-7.
149. Yang CH, etal., Invest Ophthalmol Vis Sci. 2005 Apr;46(4):1339-47.
150. Yang X, etal., Eur J Immunogenet. 2004 Feb;31(1):11-4.
151. Yin R, etal., J Heart Lung Transplant. 2007 May;26(5):485-93.
152. Zhang C, etal., J Int Med Res. 2018 Feb;46(2):739-751. doi: 10.1177/0300060517730174. Epub 2017 Sep 20.
153. Zhang M, etal., Am J Hypertens. 2006 Jan;19(1):67-72.
154. Zhang RX, etal., J Investig Allergol Clin Immunol. 2007;17(5):329-36.
155. Zhang Y, etal., Genet Mol Res. 2013 Nov 7;12(4):5289-300. doi: 10.4238/2013.November.7.4.
156. Zhao H, etal., Transplant Proc. 2013 Mar;45(2):635-8. doi: 10.1016/j.transproceed.2012.03.065.
157. Zhou Y, etal., J Rheumatol. 2003 Jul;30(7):1541-7.
158. Zhu XB, etal., Neuropathol Appl Neurobiol. 2012 Oct;38(6):602-16. doi: 10.1111/j.1365-2990.2012.01251.x.
Additional References at PubMed
PMID:8631787   PMID:8699119   PMID:9139699   PMID:9655467   PMID:10383387   PMID:10521508   PMID:10528159   PMID:10679098   PMID:11278962   PMID:12032188   PMID:12421915   PMID:16208318  
PMID:16301745   PMID:16841089   PMID:18230715   PMID:18632580   PMID:19008373   PMID:19523456   PMID:21515370   PMID:22353418   PMID:23610400   PMID:23620790   PMID:24086760   PMID:25300256  
PMID:26550961   PMID:26740279   PMID:26983670   PMID:27848062   PMID:31066041   PMID:31574524   PMID:32446198  


Genomics

Comparative Map Data
Ccr5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28123,752,423 - 123,757,538 (+)NCBI
Rnor_6.0 Ensembl8133,197,032 - 133,215,614 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08133,192,398 - 133,215,599 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08132,362,664 - 132,367,779 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48128,907,157 - 128,912,272 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18128,929,594 - 128,932,000 (+)NCBI
Celera8122,847,673 - 122,852,786 (+)NCBICelera
Cytogenetic Map8q32NCBI
CCR5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl346,370,854 - 46,376,206 (+)EnsemblGRCh38hg38GRCh38
GRCh38346,370,142 - 46,376,206 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37346,411,633 - 46,417,697 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36346,386,637 - 46,392,701 (+)NCBINCBI36hg18NCBI36
Celera346,348,960 - 46,355,024 (+)NCBI
Cytogenetic Map3p21.31NCBI
HuRef346,455,276 - 46,461,340 (+)NCBIHuRef
CHM1_1346,361,630 - 46,367,689 (+)NCBICHM1_1
Ccr5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399123,921,557 - 123,934,153 (+)NCBIGRCm39mm39
GRCm39 Ensembl9123,921,580 - 123,947,736 (+)Ensembl
GRCm389124,121,543 - 124,127,183 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9124,121,543 - 124,147,699 (+)EnsemblGRCm38mm10GRCm38
MGSCv379124,036,282 - 124,041,922 (+)NCBIGRCm37mm9NCBIm37
Celera9124,872,533 - 124,878,180 (-)NCBICelera
Cytogenetic Map9F4NCBI
cM Map975.05NCBI
CCR5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1347,377,564 - 47,383,625 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl347,380,321 - 47,381,379 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0346,273,096 - 46,278,471 (+)NCBIMhudiblu_PPA_v0panPan3
CCR5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12042,293,288 - 42,297,952 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2042,294,996 - 42,297,952 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2042,210,909 - 42,213,866 (-)NCBI
ROS_Cfam_1.02042,775,514 - 42,780,183 (-)NCBI
UMICH_Zoey_3.12042,018,434 - 42,021,393 (-)NCBI
UNSW_CanFamBas_1.02042,419,865 - 42,422,824 (-)NCBI
UU_Cfam_GSD_1.02042,700,801 - 42,703,760 (-)NCBI
CCR5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1329,383,303 - 29,387,902 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11329,382,383 - 29,387,902 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21332,546,545 - 32,551,732 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCR5
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1227,803,794 - 7,818,112 (+)NCBI

Position Markers
Cmkbr5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28123,756,008 - 123,756,165 (+)MAPPER
Rnor_6.08133,214,070 - 133,214,226NCBIRnor6.0
Rnor_5.08132,366,250 - 132,366,406UniSTSRnor5.0
RGSC_v3.48128,910,743 - 128,910,899UniSTSRGSC3.4
Celera8122,851,258 - 122,851,414UniSTS
Cytogenetic Map8q32UniSTS
PMC122923P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28123,755,127 - 123,755,373 (+)MAPPER
Rnor_6.08133,213,189 - 133,213,434NCBIRnor6.0
Rnor_5.08132,365,369 - 132,365,614UniSTSRnor5.0
RGSC_v3.48128,909,862 - 128,910,107UniSTSRGSC3.4
Celera8122,850,377 - 122,850,622UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102051964133307652Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8104682575133307652Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)8104682575133307652Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:18
Count of miRNA genes:18
Interacting mature miRNAs:18
Transcripts:ENSRNOT00000075564
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 5 15 8 1 5 6
Low 3 35 52 41 4 41 8 10 66 34 34 5 8
Below cutoff 6 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075564   ⟹   ENSRNOP00000066146
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8133,197,032 - 133,214,257 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082774   ⟹   ENSRNOP00000073121
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8133,210,473 - 133,215,614 (+)Ensembl
RefSeq Acc Id: NM_053960   ⟹   NP_446412
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28123,752,423 - 123,757,538 (+)NCBI
Rnor_6.08133,210,484 - 133,215,599 (+)NCBI
Rnor_5.08132,362,664 - 132,367,779 (+)NCBI
RGSC_v3.48128,907,157 - 128,912,272 (+)RGD
Celera8122,847,673 - 122,852,786 (+)RGD
Sequence:
RefSeq Acc Id: XM_017595419   ⟹   XP_017450908
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08133,194,146 - 133,214,257 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001839130
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08133,192,406 - 133,197,171 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001839131
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08133,192,398 - 133,197,171 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001839132
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08133,194,123 - 133,197,171 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_446412   ⟸   NM_053960
- UniProtKB: O08556 (UniProtKB/Swiss-Prot),   Q68G28 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450908   ⟸   XM_017595419
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000073121   ⟸   ENSRNOT00000082774
RefSeq Acc Id: ENSRNOP00000066146   ⟸   ENSRNOT00000075564
Protein Domains
G_PROTEIN_RECEP_F1_2

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13696416
Promoter ID:EPDNEW_R6941
Type:initiation region
Name:Ccr5_1
Description:chemokine (C-C motif) receptor 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08133,210,484 - 133,210,544EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 132365535 132365536 C A snv BN/SsNSlc (KyushuU), RCS/Kyo (KyushuU), F344/NSlc (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), LE/OrlBarth (UDEL), IS/Kyo (KyushuU), LE/Stm (KyushuU), BDIX/NemOda (KyushuU), SDLEF7/Barth (UDEL), LEC/Tj (KyushuU), Crl:SD (UDEL), HWY/Slc (KyushuU), F344/Stm (KyushuU), ZFDM (KyushuU), IS-Tlk/Kyo (KyushuU), NIG-III/Hok (KyushuU), BUF/MNa (KyushuU), ZF (KyushuU)
8 132365926 132365927 C T snv LEC/Tj (KyushuU), F344/Jcl (KyushuU), BDIX/NemOda (KyushuU), DOB/Oda (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), F344/Stm (KyushuU), IS-Tlk/Kyo (KyushuU), RCS/Kyo (KyushuU), F344/NSlc (KyushuU), HTX/Kyo (KyushuU), LE/Stm (KyushuU), F344/DuCrlCrlj (KyushuU), NIG-III/Hok (KyushuU), BUF/MNa (KyushuU), IS/Kyo (KyushuU), LE/OrlBarth (UDEL), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), SBN/Ygl (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), SBH/Ygl (MCW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW)


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 133213355 133213356 C A snv WKY/Gcrc (RGD), MHS/Gib (RGD), LL/MavRrrc (RGD), LN/MavRrrc (RGD), CDR, LE/Stm (RGD), BBDP/Wor (RGD), CDS, LEW/NCrlBR (RGD)
8 133213706 133213707 C G snv WKY/Gcrc (RGD), SBN/Ygl (RGD), SBH/Ygl (RGD), BBDP/Wor (RGD)
8 133213709 133213710 A C snv SBH/Ygl (RGD), BBDP/Wor (RGD), SBN/Ygl (RGD), WKY/Gcrc (RGD)
8 133213746 133213747 C T snv WKY/N (MCW), WN/N (MCW), FHL/EurMcwi (RGD), COP/CrCrl (MCW & UW), SR/JrHsd (MCW), BBDP/Wor (RGD), SBN/Ygl (RGD), SBN/Ygl (MCW), CDS, SS/JrHsdMcwi (MCW), FHL/EurMcwi (MCW), Buf/N (MCW), FHH/EurMcwi (MCW), CDR, SBH/Ygl (MCW), GH/OmrMcwi (MCW), WKY/NHsd (RGD), MR/N (MCW), M520/N (MCW), F344/NRrrc (MCW), WKY/Gcrc (RGD), GK/Ox (RGD)
8 133213784 133213785 T A snv LN/MavRrrc (RGD), LEW/Crl (RGD), LL/MavRrrc (RGD), WKY/NCrl (RGD), SR/JrHsd (RGD)
8 133213788 133213789 A T snv LL/MavRrrc (RGD), CDS, SR/JrHsd (RGD), CDR, WKY/NCrl (RGD), LEW/Crl (RGD), LN/MavRrrc (RGD)
8 133213994 133213995 C A snv MNS/Gib (RGD)
8 133213998 133213999 A G snv MNS/Gib (RGD)
8 133214006 133214007 A T snv MNS/Gib (RGD)


Assembly: RGSC_v3.4
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 128910419 128910420 C T snv SHR/OlaIpcv (ICL), LCR/2Mco (UMich), SHRSP/Gcrc (MDC), SS/JrHsdMcwi (MDC), BUF/N (KNAW), F344/NRrrc (KNAW), LE/Stm (KNAW), M520/N (KNAW), MR/N (KNAW), WKY/N (KNAW), WN/N (KNAW), SHR/OlaIpcv (KNAW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), BBDP/WorN (ICL), F344/NCrl (ICL), LE/Stm (ICL), FHH/EurMcwi (ICL), FHL/EurMcwi (ICL), GK/Ox (ICL), LEW/Crl (ICL), LEW/NCrl (ICL), LH/MavRrrc (ICL), LL/MavRrrc (ICL), LN/MavRrrc (ICL), MHS/Gib (ICL), MNS/Gib (ICL), SBH/Ygl (ICL), SBN/Ygl (ICL), SHR/OlaIpcv (ICL), SHR/NHsd (ICL), SHRSP/Gcrc (ICL), SR/JrHsd (ICL), SS/Jr (ICL), SS/JrHsdMcwi (ICL), WAG/Rij (ICL), WKY/Gcrc (ICL), WKY/NHsd (ICL), WKY/NCrl (ICL), HCR/1Mco (UMich), LCR/1Mco (UMich), HCR/2Mco (UMich), FHH/EurMcwi (MDC)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620596 AgrOrtholog
Ensembl Genes ENSRNOG00000049115 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000066146 UniProtKB/TrEMBL
  ENSRNOP00000073121 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075564 UniProtKB/TrEMBL
  ENSRNOT00000082774 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109679 IMAGE-MGC_LOAD
InterPro Chemokine_CCR5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCR_Rhodpsn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:117029 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93260 IMAGE-MGC_LOAD
NCBI Gene 117029 ENTREZGENE
Pfam 7tm_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB CCR5 RGD
PhenoGen Ccr5 PhenoGen
PRINTS CCCHEMOKINER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CHEMOKINER5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCRRHODOPSN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CCR5_RAT UniProtKB/Swiss-Prot
  M0R9H7_RAT UniProtKB/TrEMBL
  O08556 ENTREZGENE
  Q68G28 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-03-16 Ccr5  C-C motif chemokine receptor 5  Ccr5  chemokine (C-C motif) receptor 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Ccr5  chemokine (C-C motif) receptor 5    chemokine (C-C) receptor 5  Name updated 1299863 APPROVED
2004-09-10 Ccr5  chemokine (C-C) receptor 5  Cmkbr5    Symbol and Name updated 1299863 APPROVED
2002-08-07 Cmkbr5  chemokine (C-C) receptor 5      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation phosphorylated by GPCR kinase (GRK)- and protein kinase C (PKC) following RANTES/CCL5 binding to receptor 632395
gene_regulation expression upregulated following bacterial infection 632396
gene_regulation downregulation of receptor is induced by interleukin-1beta 632389